Showing : wgcna • reset
8
votes
17
replies
14k
views
WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA Sample Size Outliers
updated 8.7 years ago by • 0 • written 9.2 years ago by ▴ 150
1
vote
5
replies
3.3k
views
adjacency function of WGCNA
wgcna
7.7 years ago wlnjseu • 0
1
vote
8
replies
4.4k
views
WGCNA error : Error in hclust
WGCNA
updated 7.3 years ago by ★ 3.0k • written 7.3 years ago by ▴ 10
5
votes
6
replies
6.6k
views
WGCNA - module membership via max kME?
wgcna modules
updated 6.5 years ago by ★ 3.0k • written 6.6 years ago by ▴ 10
0
votes
4
replies
2.5k
views
some wgcna issues
wgcna
9.1 years ago zhouxiuqing • 0
2
votes
7
replies
4.6k
views
How to create "trait data" file for WGCNA
wgcna coexpression correlation microarray
updated 8.2 years ago by ★ 3.0k • written 8.2 years ago by ▴ 20
3
votes
6
replies
1.4k
views
Questions on Pigengene
Pigengene WGCNA
updated 6.1 years ago by ▴ 200 • written 6.2 years ago by • 0
3
votes
4
replies
3.4k
views
interactive networks from WGCNA clusters
wgcna rcytoscape
updated 7.8 years ago by ▴ 120 • written 7.8 years ago by ▴ 20
4
votes
3
replies
920
views
WGCNA documentation not available
WGCNA
written 4 months ago by ▴ 10
1
vote
5
replies
1.3k
views
Error in sizeRestrictedClusterMerge: replace is not a multiple of replacement length
wgcna
updated 5.0 years ago by ★ 3.0k • written 5.0 years ago by ▴ 730
1
vote
3
replies
1.1k
views
Wired modules WGCNA cluster dendrogam
wgcna
updated 7.4 years ago by ★ 3.0k • written 7.4 years ago by ▴ 70
5
votes
8
replies
3.9k
views
Problem about picking soft threshold power in WGCNA software
wgcna rnaseq
written 7.2 years ago by ▴ 40
4
votes
9
replies
3.3k
views
WGCNA | pickSoftThreshold.fromSimilarity not working for input similarity matrix
WGCNA similarity correlation bioconductor rnaseq
updated 7.3 years ago by ★ 3.0k • written 7.3 years ago by ▴ 40
3
votes
4
replies
2.4k
views
Question about WGCNA soft thresholding value
wgcna
7.3 years ago jessewilson13 • 0
14
votes
4
replies
14k
views
WGCNA Hub Gene Selection Method
WGCNA Hub Genes KmE Intramodular Connectivity
updated 8.8 years ago by ★ 3.0k • written 8.8 years ago by ▴ 150
0
votes
2
replies
515
views
Trouble generating a dendrogram with colored gene modules using WGCNA for large RNA-seq experiment
WGCNA
written 4 months ago by • 0
2
votes
9
replies
3.9k
views
Deseq2 normalization for WGCNA
RNASeq Deseq2 DESeq2 WGCNA
updated 2.0 years ago by 41k • written 2.4 years ago by ▴ 10
1
vote
6
replies
2.3k
views
WGCNA with distance matrix only from newick data.
WGCNA eigengene hub genes
6.5 years ago yifangt ▴ 20
2
votes
7
replies
3.1k
views
WGCNA: Topological Overlap Matrix (TOM) Values Greater Than 1
WGCNA
3.6 years ago teresisc ▴ 10
7
votes
4
replies
2.7k
views
Minimum number of samples per treatment/group for WGCNA analysis
WGCNA RNA-seq GCN gene coexpression network
updated 5.0 years ago by ▴ 20 • written 5.0 years ago by ▴ 50
2
votes
3
replies
1.6k
views
Interpretaion of dendrogram height in WGCNA?
WGCNA coexpression network
updated 4.3 years ago by ★ 3.0k • written 4.3 years ago by ▴ 30
0
votes
5
replies
1.7k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 12 months ago by • 0
11
votes
5
replies
7.4k
views
Theoretical WGCNA Question
WGCNA Theory Scale-Free Topology
updated 14 days ago by • 0 • written 9.1 years ago by ▴ 150
0
votes
4
replies
1.6k
views
WGCNA soft threshold with methylation data but no scale-free topology
methylation EPIC scale-free topology WGCNA
updated 15 months ago by • 0 • written 4.7 years ago by • 0
1
vote
2
replies
2.7k
views
WGNCA kME vs. kIM
WGCNA
updated 11 months ago by • 0 • written 8.6 years ago by ▴ 30
2
votes
6
replies
4.7k
views
Error running TOMplot in WGCNA package
wgcna network
updated 9.6 years ago by ▴ 180 • written 9.6 years ago by ▴ 250
0
votes
4
replies
3.9k
views
WGCNA grey module
WGCNA
updated 13 months ago by ▴ 10 • written 6.0 years ago by ▴ 10
2
votes
2
replies
1.6k
views
WGCNA - module membership preservation for low count genes
wgcna
6.8 years ago ly.leifels ▴ 10
4
votes
6
replies
5.5k
views
WGCNA automatic vs manual network creation
WGCNA
updated 8.5 years ago by ★ 3.0k • written 8.5 years ago by ▴ 30
0
votes
2
replies
228
views
WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
5 weeks ago • updated 4 weeks ago w.cookson • 0
0
votes
2
replies
4.1k
views
WGCNA - problems picking a suitable power
WGCNA pickSoftThreshold power RNA-Seq
updated 8.2 years ago by ★ 3.0k • written 8.2 years ago by ▴ 10
2
votes
3
replies
4.2k
views
WGCNA TOMType specification
WGCNA network analysis Sign
6.6 years ago • updated 6.0 years ago aurora.savino ▴ 10
12
votes
4
replies
3.8k
views
WGCNA following salmon/DESeq2
deseq2 wgcna salmon
updated 5.4 years ago by ★ 3.0k • written 5.4 years ago by ▴ 30
0
votes
2
replies
2.7k
views
WGCNA - Using real data for tutorial III
pathways wgcna network rna-seq
8.3 years ago hywel.williams • 0
1
vote
2
replies
2.3k
views
WGCNA small number of genes
WGCNA
updated 7.3 years ago by ★ 3.0k • written 7.3 years ago by ▴ 10
3
votes
5
replies
7.3k
views
WGCNA HELP - Error: REAL() can only be applied to a 'numeric', not a 'integer'
wgcna rnaseq R bioconductor
updated 8.3 years ago by ★ 3.0k • written 8.3 years ago by ▴ 30
3
votes
5
replies
7.6k
views
Wgcna with missing values - error with calculation of bicor correlations in pickSoftThreshold and blockwiseModules
software error rnaseq wgcna missing data
8.4 years ago • updated 8.0 years ago dvillarlozano ▴ 10
3
votes
6
replies
2.6k
views
WGCNA normalized CDF to use, WGCNA Intramodular connectivity
wgcna affymetrix microarrays affy
updated 8.8 years ago by ★ 3.0k • written 8.9 years ago by ▴ 30
4
votes
2
replies
3.4k
views
WGCNA: Relating Modules to Categorical External Traits
WGCNA BetweenGroupComparison
8.4 years ago mjc5038 ▴ 30
2
votes
3
replies
2.8k
views
WGCNA cytoscape export question
WGCNA
updated 8.8 years ago by ★ 3.0k • written 8.8 years ago by ▴ 30
8
votes
4
replies
6.9k
views
WGCNA: overlapping colors in plotDendroAndColors?
wgcna plotDendroAndColors Network
updated 9.6 years ago by ★ 3.0k • written 9.6 years ago by ▴ 180
1
vote
2
replies
2.2k
views
DESeq2 residuals log transformation input for WGCNA
deseq2 residuals wgcna
updated 7.1 years ago by ★ 13k • written 7.1 years ago by ▴ 10
1
vote
3
replies
1.8k
views
WGCNA clustering configuration
clustering wgcna microarray
updated 8.0 years ago by ★ 3.0k • written 8.0 years ago by ▴ 730
4
votes
5
replies
2.2k
views
WGCNA network visualisation in RCyjs
WGCNA rcytoscape network analysis
updated 7.9 years ago by ▴ 470 • written 7.9 years ago by ▴ 20
15
votes
17
replies
23k
views
WGCNA: What is `soft thresholding`?
wgcna network analysis network correlation coexpression
updated 3.4 years ago by ▴ 730 • written 7.6 years ago by ▴ 40
11
votes
8
replies
8.6k
views
Pre-processing of RNA-Seq data for WGCNA and DGE
WGCNA RNA-Seq DESeq2 voom removebatcheffect()
updated 7.6 years ago by ★ 3.0k • written 7.6 years ago by ▴ 70
9
votes
7
replies
4.1k
views
WGCNA: relate modules to binary trait
WGCNA module eigengene binary trait R
updated 5.3 years ago by ▴ 30 • written 5.3 years ago by ▴ 50
1
vote
2
replies
1.9k
views
problem with WGCNA script: dissTOM
wgcna
updated 8.5 years ago by ★ 3.0k • written 8.5 years ago by • 0
2
votes
3
replies
2.7k
views
WGCNA Cohort Question
wgcna
updated 8.9 years ago by ★ 3.0k • written 8.9 years ago by ▴ 30
11
votes
3
replies
4.9k
views
WGCNA - Signed vs signed hybrid networks
wgcna
updated 7.8 years ago by ★ 3.0k • written 7.8 years ago by ▴ 20
50 results • Page 1 of 1
Recent ...
Replies
Comment: Too many significant genes when integrating gtex and tcga by Michael Love 41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Answer: Too many significant genes when integrating gtex and tcga by James W. MacDonald 65k
See `?results`, in particular the lfcThreshold argument.
Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k
You already ran a temporal assay. Now you can compare each time point to the baseline. The interaction term is only applicable if you have…
Comment: Timecourse RNASeq analysis by Aurora • 0
I managed to run ImpulseDE2 as I am interested in getting significant gene changes over time. Now I would like to run deseq as well and com…
Comment: Once again a "Model matrix not full rank" by arfranco ▴ 130
But.. How to run a temporal assay?
Votes
A: Print Differentially Expressed Exons From Dexseq Results
stuck on unimplemented type 'list' in 'EncodeElement'
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
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